[[#|Start]] out with a title slide that has the Journal Article name and Authors on it.
Put YOUR name on title slide also since you are presenting.
Put the date of the presentation on their as well - and something like 'VDS Summer Journal Club'
Create an introduction that provides a broad perspective for the specific [[#|work]] being presented. For example, if you are presenting a [[#|paper]] on a new protein, you should provide some background on the protein family and what it does. Don't assume that everyone in your audience knows the background. You can use your own content if you like - along with that given by the authors.
Include a picture or image that helps give a visual for the background.
Include any statistics about the disease and its prevalence (this is motivation)
Instead of simply describing the methods used, look at the methods critically, with an eye for anything interesting or unusual. Point out anything that might be generally useful. For example, did the authors use any techniques that we are currently using in our lab?
Include graphs and figures from the paper. You can also make your own cartoons and schematic diagrams or show relevant pictures to get across the point.
Make an effort to explain what is going on in the figures (try to include all of them - but you can leave out some if they do not contribute to a 10 minute presentation)
Be sure to actually show the images and figures from the paper when talking about them (include some type of caption)
Do the results suggest any additional experiments that would be the next [[#|step]]?
Feel [[#|free]] to interject your own viewpoint of the research (is it valuable, did they do anything you liked or disliked?)
Clearly explain the significance of the results. Results by themselves are dull, unless they have significance. The significance may not be obvious to the audience, so point it out specifically.
What is the most significant contribution of the specific [[#|work]] to the field in general?
Try to appear truly interested (even excited!) about the work you are presenting. Enthusiasm is contagious, and keeps your audience interested. Can you think of anything to make your presentation unique? An unusual prop or visual aid? Make your presentation "professional". That means, stand up in front, look directly at your audience, and don't "read" your slides.
Go through your talk at least once as a practice run
TIPS:
for [[#|best]] contrast and readability - use black text on white background.
Put date on the title slide
When you get to a figure, explain what is on the X axis and what is on the Y-axis. This helps them understand the graph and also gives a little time for them to view the graph and digest what is being shown.
For graphs and tables - be sure to explicitly state what the 'take home message' of that figure is. What does the graph tell the reader?
Run a draft of your presentation by Dr. B a few days before you present it.
Upload your presentation before class to the GroupMeetingSlides/Journal Club folder on Google Docs
Presentation Order:
1st Week: none
2nd Week: Max
3rd Week: Michael
4th Week: Daniel
5th Week: Urvashi
6th Week - July 9th: Janice
7th Week - July 16th: Aldo
8th Week - July 23th: Andrew
9th Week - July 30th:
Kaarthik, Alex, Aakash - for Fall
1st Paper MONDAY 4-Jun NAME
Zolli-Juran, M.; Cechetto, J. D.; Hartlen, R.; Daigle, D. M.; Brown, E. D., High throughput screening identifies novel inhibitors of Escherichia coli dihydrofolate reductase that are competitive with dihydrofolate. Bioorganic & Medicinal Chemistry Letters 2003, 13 (15), 2493-2496. Zolli_JuranDHFRbacteriaHTSBioorgMedChemLett2003.pdf
2nd Paper MONDAY 11-Jun NAME: Michael
Park, H.; Kim, Y. J.; Hahn, J. S., A novel class of Hsp90 inhibitors isolated by structure-based virtual screening. Bioorganic & Medicinal Chemistry Letters2007,17 (22), 6345-6349. ParkHsp90drugVirtualScreenBioorgMedChemLett2007.pdf
MONDAY 18-Jun
Dr. B out
3rd Paper MONDAY 25-Jun Daniel Zhang, Y.; White, S.; Rock, C., Inhibiting bacterial fatty acid synthesis. J Biol Chem2006,281 (26), 17541-4. FASII_review_jbc2006.pdf
NAME - Urvashi
DATE:MONDAY 2-Ju
Li, Z.; Garner, A. L.; Gloeckner, C.; Janda, K. D.; Carlow, C. K., Targeting the Wolbachia cell division protein FtsZ as a new approach for antifilarial therapy. PLoS Negl Trop Dis2011,5 (11), e1411.
NAME - Janice DATE:MONDAY 9th July
Prasannan, P.; Suliman, H. S.; Robertus, J. D., Kinetic analysis of site-directed mutants of methionine synthase from Candida albicans. Biochem Biophys Res Commun2009,382 (4), 730-4. PrasannanPriya_MetSynthaseKinetic_RobertusBiochemBiophysResComm2009.pdf
NAME- Aldo DATE: Monday 16th of July
Cho, Y.; Ioerger, T.; Sacchettini, J., Discovery of novel nitrobenzothiazole inhibitors for Mycobacterium tuberculosis ATP phosphoribosyl transferase (HisG) through virtual screening. J Med Chem2008,51 (19), 5984-92. ChoSacchettiniVirtualScreening_TB_HisG_JMedChem2008.pdf
Herschhorn, A.; Hizi, A., Virtual screening, identification, and biochemical characterization of novel inhibitors of the reverse transcriptase of human immunodeficiency virus type-1. J Med Chem2008,51 (18), 5702-13. HerschhornHIVreversetranscriptaseVirtualScreenJMedChem2008.pdf
Henriksson, L. M.; Unge, T.; Carlsson, J.; Aqvist, J.; Mowbray, S. L.; Jones, T. A., Structures of Mycobacterium tuberculosis 1-deoxy-D-xylulose-5-phosphate reductoisomerase provide new insights into catalysis. J Biol Chem2007,282 (27), 19905-16. HenrikksonMtDXR_JBiolChem2007.pdf
Hirayama, K.; Aoki, S.; Nishikawa, K.; Matsumoto, T.; Wada, K., Identification of novel chemical inhibitors for ubiquitin C-terminal hydrolase-L3 by virtual screening. Bioorg Med Chem 2007, 15 (21), 6810-8. VDS_UBL3_bioorgmedchem2007.pdf
Singh, J.; Chuaqui, C.; Boriack-Sjodin, P.; Lee, W.; Pontz, T.; Corbley, M.; Cheung, H.; Arduini, R.; Mead, J.; Newman, M.; Papadatos, J.; Bowes, S.; Josiah, S.; Ling, L., Successful shape-based virtual screening: the discovery of a potent inhibitor of the type I TGFbeta receptor kinase (TbetaRI). Bioorg Med Chem Lett 2003, 13 (24), 4355-9. SinghVirtualTGFbetaBioorgMedChemLett2003.pdf
4th Papers
Mochalkin, I.; Miller, J.; Narasimhan, L.; Thanabal, V.; Erdman, P.; Cox, P.; Prasad, J.; Lightle, S.; Huband, M.; Stover, C., Discovery of antibacterial biotin carboxylase inhibitors by virtual screening and fragment-based approaches. ACS Chem Biol 2009, 4 (6), 473-83. MochalkinVirtualScreeningBiotinCarboxylaseFASII_ACSCHemBiol2009.pdf
3rd Papers
Bai, Y.; Monzingo, A.; Robertus, J., The X-ray structure of ricin A chain with a novel inhibitor. Arch Biochem Biophys2009,483 (1), 23-8. BaiRicinVirtualScreenToxicon2010.pdf
Guidelines:
- TIPS:
- for [[#|best]] contrast and readability - use black text on white background.
- Put date on the title slide
- When you get to a figure, explain what is on the X axis and what is on the Y-axis. This helps them understand the graph and also gives a little time for them to view the graph and digest what is being shown.
- For graphs and tables - be sure to explicitly state what the 'take home message' of that figure is. What does the graph tell the reader?
Run a draft of your presentation by Dr. B a few days before you present it.Upload your presentation before class to the GroupMeetingSlides/Journal Club folder on Google Docs
Presentation Order:
1st Week: none
2nd Week: Max
3rd Week: Michael
4th Week: Daniel
5th Week: Urvashi
6th Week - July 9th: Janice
7th Week - July 16th: Aldo
8th Week - July 23th: Andrew
9th Week - July 30th:
Kaarthik, Alex, Aakash - for Fall
1st Paper
MONDAY 4-Jun
NAME
Zolli-Juran, M.; Cechetto, J. D.; Hartlen, R.; Daigle, D. M.; Brown, E. D., High throughput screening identifies novel inhibitors of Escherichia coli dihydrofolate reductase that are competitive with dihydrofolate. Bioorganic & Medicinal Chemistry Letters 2003, 13 (15), 2493-2496.
Zolli_JuranDHFRbacteriaHTSBioorgMedChemLett2003.pdf
2nd Paper
MONDAY 11-Jun
NAME: Michael
Park, H.; Kim, Y. J.; Hahn, J. S., A novel class of Hsp90 inhibitors isolated by structure-based virtual screening. Bioorganic & Medicinal Chemistry Letters 2007, 17 (22), 6345-6349.
ParkHsp90drugVirtualScreenBioorgMedChemLett2007.pdf
MONDAY 18-Jun
Dr. B out
3rd Paper
MONDAY 25-Jun
Daniel
Zhang, Y.; White, S.; Rock, C., Inhibiting bacterial fatty acid synthesis. J Biol Chem 2006, 281 (26), 17541-4.
FASII_review_jbc2006.pdf
NAME - Urvashi
DATE: MONDAY 2-Ju
Li, Z.; Garner, A. L.; Gloeckner, C.; Janda, K. D.; Carlow, C. K., Targeting the Wolbachia cell division protein FtsZ as a new approach for antifilarial therapy. PLoS Negl Trop Dis 2011, 5 (11), e1411.
LiWolbachia_ftsz_PLOSNegTropDis2011.pdf
JournalClubQuestions070212WolFtsZ.doc
NAME - Janice
DATE: MONDAY 9th July
Prasannan, P.; Suliman, H. S.; Robertus, J. D., Kinetic analysis of site-directed mutants of methionine synthase from Candida albicans. Biochem Biophys Res Commun 2009, 382 (4), 730-4.
PrasannanPriya_MetSynthaseKinetic_RobertusBiochemBiophysResComm2009.pdf
JournalClubQuestions070912CANDIDA.doc
NAME- Aldo
DATE: Monday 16th of July
Cho, Y.; Ioerger, T.; Sacchettini, J., Discovery of novel nitrobenzothiazole inhibitors for Mycobacterium tuberculosis ATP phosphoribosyl transferase (HisG) through virtual screening. J Med Chem 2008, 51 (19), 5984-92.
ChoSacchettiniVirtualScreening_TB_HisG_JMedChem2008.pdf
JournalClubQuestions071612HisG.docx
NAME- Andrew
DATE: MONDAY 23-Jul
Herschhorn, A.; Hizi, A., Virtual screening, identification, and biochemical characterization of novel inhibitors of the reverse transcriptase of human immunodeficiency virus type-1. J Med Chem 2008, 51 (18), 5702-13.
HerschhornHIVreversetranscriptaseVirtualScreenJMedChem2008.pdf
JournalClubQuestions072312_HIV.doc
SCRATCH
Henriksson, L. M.; Unge, T.; Carlsson, J.; Aqvist, J.; Mowbray, S. L.; Jones, T. A., Structures of Mycobacterium tuberculosis 1-deoxy-D-xylulose-5-phosphate reductoisomerase provide new insights into catalysis. J Biol Chem 2007, 282 (27), 19905-16.
HenrikksonMtDXR_JBiolChem2007.pdf
GAPDH paper - ?? for Fall
MONDAY 9-Jul
MONDAY 16-Jul
MONDAY 30-Jul
MONDAY 6-Aug
NAME
7th Paper:
Tomlinson, S.; Malmstrom, R.; Watowich, S., New approaches to structure-based discovery of dengue protease inhibitors. Infect Disord Drug Targets 2009, 9 (3), 327-43.
TomlinsonWatowichDengueVirusInfectiousDisordersDrugTargets2009.pdf
6th Papers:
Hirayama, K.; Aoki, S.; Nishikawa, K.; Matsumoto, T.; Wada, K., Identification of novel chemical inhibitors for ubiquitin C-terminal hydrolase-L3 by virtual screening. Bioorg Med Chem 2007, 15 (21),
6810-8.
VDS_UBL3_bioorgmedchem2007.pdf
Sacchettini, J.; Rubin, E.; Freundlich, J., Drugs versus bugs: in pursuit of the persistent predator Mycobacterium tuberculosis. Nat Rev Microbiol 2008, 6 (1), 41-52.
SacchettiniTuberculosis_DrugsVsBugsNatRevMicrobiol2008.pdf
5th Papers
Singh, J.; Chuaqui, C.; Boriack-Sjodin, P.; Lee, W.; Pontz, T.; Corbley, M.; Cheung, H.; Arduini, R.; Mead, J.; Newman, M.; Papadatos, J.; Bowes, S.; Josiah, S.; Ling, L., Successful shape-based virtual screening: the discovery of a potent inhibitor of the type I TGFbeta receptor kinase (TbetaRI). Bioorg Med Chem Lett 2003, 13 (24), 4355-9.
SinghVirtualTGFbetaBioorgMedChemLett2003.pdf
4th Papers
Mochalkin, I.; Miller, J.; Narasimhan, L.; Thanabal, V.; Erdman, P.; Cox, P.; Prasad, J.; Lightle, S.; Huband, M.; Stover, C., Discovery of antibacterial biotin carboxylase inhibitors by virtual screening and fragment-based approaches. ACS Chem Biol 2009, 4 (6), 473-83.
MochalkinVirtualScreeningBiotinCarboxylaseFASII_ACSCHemBiol2009.pdf
3rd Papers
Bai, Y.; Monzingo, A.; Robertus, J., The X-ray structure of ricin A chain with a novel inhibitor. Arch Biochem Biophys 2009, 483 (1), 23-8.
BaiRicinVirtualScreenToxicon2010.pdf